PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID NNU_010558-RA
Organism
Nelumbo nucifera
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; stem eudicotyledons; Proteales; Nelumbonaceae; Nelumbo
Family ARF
Protein Properties Length: 713aa    MW: 78530.3 Da    PI: 6.2846
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
NNU_010558-RAgenomeCASView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B362.95.1e-20132244197
                    EEEE-..-HHHHTT-EE--HHH.HTT...................---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT CS
             B3   1 ffkvltpsdvlksgrlvlpkkfaeeh...................ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkeg 77 
                    f+k+lt sd++++g +++p++ ae++                   +++++  ++l+ +d++   W++++iyr++++r++lt+GW+ Fv+ ++L +g
  NNU_010558-RA 132 FCKTLTASDTSTHGGFSVPRRAAEKIfpplvctvleiyfnnlkdfSMQPPA-QELVARDLHDVAWTFRHIYRGQPKRHLLTTGWSVFVSTKRLFAG 226
                    99******************************************9444444.48****************************************** PP

                    -EEEEEE-SSSEE..EEEEE CS
             B3  78 DfvvFkldgrsefelvvkvf 97 
                    D+v+F +  +++ +l+++ +
  NNU_010558-RA 227 DSVLFIR--DEKSQLLLGTR 244
                    ******4..45555566655 PP
2Auxin_resp122.92.3e-40271353183
     Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                    aahaa+++s+F+++YnPras+seFv+ ++k++ka++++vs+GmRf+m+fete+s  rr++Gt++g+sdldpvrW+nS+Wr+L+
  NNU_010558-RA 271 AAHAAANNSPFTIFYNPRASPSEFVILLSKYNKAMYTQVSLGMRFRMMFETEESGVRRYMGTITGISDLDPVRWKNSQWRNLQ 353
                    79*******************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019362.49E-41122274IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.1E-37124260IPR015300DNA-binding pseudobarrel domain
CDDcd100175.34E-17131237No hitNo description
PROSITE profilePS5086310.32132247IPR003340B3 DNA binding domain
PfamPF023622.1E-18132244IPR003340B3 DNA binding domain
SMARTSM010192.0E-18132247IPR003340B3 DNA binding domain
PfamPF065072.4E-35271353IPR010525Auxin response factor
PROSITE profilePS5174523.109601694IPR000270PB1 domain
PfamPF023092.2E-8613687IPR033389AUX/IAA domain
SuperFamilySSF542774.64E-8619679No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009725Biological Processresponse to hormone
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 713 aa     Download sequence    Send to blast
MKAPSNGFAA TSGEGERKSK NSELWHACAG PLVSLPPVGS LVVYFPQGHS EQVAASMQKE  60
TDSIPSYPNL PSKLICVLHN VTLHADPETD EVYAQMALQP VNKVGQKHQY DKEALLASDM  120
GLKQSKQPTE FFCKTLTASD TSTHGGFSVP RRAAEKIFPP LVCTVLEIYF NNLKDFSMQP  180
PAQELVARDL HDVAWTFRHI YRGQPKRHLL TTGWSVFVST KRLFAGDSVL FIRDEKSQLL  240
LGTRHASRQQ PALSSSVISS DSMHIGILAA AAHAAANNSP FTIFYNPRAS PSEFVILLSK  300
YNKAMYTQVS LGMRFRMMFE TEESGVRRYM GTITGISDLD PVRWKNSQWR NLQVGWDEST  360
VGERPSRVSI WDIEPVATPF YICPPPFFRP KFPRQSGMPG QHKQPITIRG HSGLTDGDAP  420
SCSASPSTNN CHVSSSSFLN RTHQVTDVMG EGMMVHSTAN PLQELQSKSD IQVKHELANL  480
KEPEQLAHKG IITDQLDASS SATSYCLDGS SSLLQNFLLP NFCLEGESQA DPPNNLLFGV  540
NIDGLTPDTL LSRGFGSGKD LQNLISSYGG TQRDIDTELS TAAISSQSFG VPDMSFKPSC  600
SNDAAVQKRG SVGRSIDVTR YSGYNELRRD LAHMFGIEGQ LEDPHRTEWK LVYVDHENDI  660
LLVGDDPWEE FVSCVQSIKI LSSTEVQQIS LDGDLGNMRD QACSGSDSGN AWK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1671537445388Auxin response factor 5
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtAuxin response factors (ARFs) are transcriptional factors that bind specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs). Could act as transcriptional activator or repressor. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. Involved in ethylene responses. Regulates lateral root formation through direct regulation of LBD16 and/or LBD29. Functionally redundant with ARF7. {ECO:0000269|PubMed:12036261, ECO:0000269|PubMed:16461383, ECO:0000269|PubMed:17259263}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin and ethylene. {ECO:0000269|PubMed:16461383}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010261761.10.0PREDICTED: auxin response factor 19-like
SwissprotQ8RYC80.0ARFS_ARATH; Auxin response factor 19
TrEMBLA0A1R3IUW20.0A0A1R3IUW2_9ROSI; Auxin response factor
STRINGPavir.Db01975.1.p0.0(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G19220.10.0auxin response factor 19
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. Perilli S, et al.
    RETINOBLASTOMA-RELATED protein stimulates cell differentiation in the Arabidopsis root meristem by interacting with cytokinin signaling.
    Plant Cell, 2013. 25(11): p. 4469-78
    [PMID:24285791]
  3. Sun Y, et al.
    Manipulation of Auxin Response Factor 19 affects seed size in the woody perennial Jatropha curcas.
    Sci Rep, 2017. 7: p. 40844
    [PMID:28102350]
  4. Wójcikowska B,Gaj MD
    Expression profiling of AUXIN RESPONSE FACTOR genes during somatic embryogenesis induction in Arabidopsis.
    Plant Cell Rep., 2017. 36(6): p. 843-858
    [PMID:28255787]
  5. Olmo R, et al.
    Molecular Transducers from Roots Are Triggered in Arabidopsis Leaves by Root-Knot Nematodes for Successful Feeding Site Formation: A Conserved Post-Embryogenic De novo Organogenesis Program?
    Front Plant Sci, 2017. 8: p. 875
    [PMID:28603536]
  6. Lee K,Seo PJ
    High-temperature promotion of callus formation requires the BIN2-ARF-LBD axis in Arabidopsis.
    Planta, 2017. 246(4): p. 797-802
    [PMID:28766014]
  7. Ayala-Rodríguez JÁ,Barrera-Ortiz S,Ruiz-Herrera LF,López-Bucio J
    Folic acid orchestrates root development linking cell elongation with auxin response and acts independently of the TARGET OF RAPAMYCIN signaling in Arabidopsis thaliana.
    Plant Sci., 2017. 264: p. 168-178
    [PMID:28969797]
  8. Nakamura M, et al.
    Auxin and ROP GTPase Signaling of Polar Nuclear Migration in Root Epidermal Hair Cells.
    Plant Physiol., 2018. 176(1): p. 378-391
    [PMID:29084900]
  9. Hong L, et al.
    Alternative polyadenylation is involved in auxin-based plant growth and development.
    Plant J., 2018. 93(2): p. 246-258
    [PMID:29155478]
  10. Lee K,Park OS,Seo PJ
    Arabidopsis ATXR2 deposits H3K36me3 at the promoters of LBD genes to facilitate cellular dedifferentiation.
    Sci Signal, 2018.
    [PMID:29184030]
  11. Kimura T, et al.
    Asymmetric Auxin Distribution is Not Required to Establish Root Phototropism in Arabidopsis.
    Plant Cell Physiol., 2018. 59(4): p. 823-835
    [PMID:29401292]
  12. Schoenaers S, et al.
    The Auxin-Regulated CrRLK1L Kinase ERULUS Controls Cell Wall Composition during Root Hair Tip Growth.
    Curr. Biol., 2018. 28(5): p. 722-732.e6
    [PMID:29478854]
  13. Huang KL, et al.
    The ARF7 and ARF19 Transcription Factors Positively Regulate PHOSPHATE STARVATION RESPONSE1 in Arabidopsis Roots.
    Plant Physiol., 2018. 178(1): p. 413-427
    [PMID:30026290]